bioFAM / mofax
Work with trained factor models in Python
☆30Updated last month
Related projects ⓘ
Alternatives and complementary repositories for mofax
- Multi-omics factor analysis v2☆36Updated last month
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆50Updated 3 weeks ago
- ☆49Updated 10 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆60Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆57Updated 5 months ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆28Updated this week
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆60Updated 6 months ago
- Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).☆18Updated this week
- .h5mu files interface for Seurat☆26Updated 11 months ago
- scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics☆50Updated 3 months ago
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆44Updated 4 months ago
- Analyzing cellular niches in spatial transcriptomics data☆27Updated last week
- ☆40Updated 3 weeks ago
- Geometry-preserving random sampling☆75Updated 3 weeks ago
- AnnData interoperability in R☆60Updated last week
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆28Updated this week
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆36Updated 2 months ago
- Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…☆41Updated 2 years ago
- Automated cell filtering for single-cell RNA sequencing data☆24Updated last year
- Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.☆47Updated 4 months ago
- Python package to perform normalization and variance-stabilization of single-cell data☆23Updated 2 years ago
- Quasilinear data representations for single-cell omics data analysis☆42Updated last year
- A python package for chromVAR☆27Updated last year
- A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA seq…☆54Updated last month
- End-to-end analysis of spatial multi-omics data☆35Updated last month
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆58Updated last week
- A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.☆54Updated 7 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆111Updated 2 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Multimodal Data (.h5mu) implementation for Python☆78Updated last month